KSL-95-31 + redirect page
Characterizing oriented protein structural sites using biochemical properties + Has identifier
Characterizing oriented protein structural sites using biochemical properties + Ksl tr id
Characterizing oriented protein structural sites using biochemical properties + Number
| Characterizing oriented protein structural sites using biochemical properties |
Bibtype
techreport
Has publishing details
March,1995
Has title
Characterizing oriented protein structural sites using biochemical properties
Has where published
KSL-95-31
Has year
1995
Title
Characterizing oriented protein structural sites using biochemical properties
Year
1995
Abstract
A protein site is a region of a three-dime … A protein site is a region of a three-dimensional protein structure, with a distinguishing functional or structural role. Certain sites recur indifferent protein structures (for example catalytic sites, calcium binding sites, and some types of turns), but maintain critical shared features. To facilitate the analysis of such protein sites, we have developed a system for analyzing the spatial distributions of biochemical properties around a site. Simply put, the system takes a set of similar sites and a set of control nonsites, and finds differences between them. Specifically, it compares distributions of the properties surrounding the sites with those surrounding the nonsites, and reports significant differences. In this paper, we apply our method to analysis of the features of the active site of the serine protease enzymes. We compare the use of radial distributions (shells) with3-D grids (blocks) in the analysis of the active site. We demonstrate three different strategies for focusing attention on significant findings, based on properties of interest, spatial volumes of interest, and on the level of statistical significance. Finally, we show that the program automatically identifies conserved sequential, secondary structural and biophysical features of the serine protease active site, using noncatalytic histidine residues as a control environment. stidine residues as a control environment.
Note
Medical Computer Science
Address
Stanford, CA, USA +
Author
Steven C. Bagley and Liping Wei and Carol Cheng and Russ B. Altman +
Has author
Steven C. Bagley and Liping Wei and Carol Cheng and Russ B. Altman +
Has identifier
Characterizing oriented protein structural sites using biochemical properties +
Institution
Knowledge Systems, AI Laboratory +
Ksl tr id
Characterizing oriented protein structural sites using biochemical properties +
Month
March +
Number
Characterizing oriented protein structural sites using biochemical properties +
Process note
NO +
Categories KSL Technical Report +, Publication +, Technical Report +
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